Bioinformatics Support for Toxicogenomics Technologies

毒物基因组学技术的生物信息学支持

• 批准号: 10379866
• 负责人: RUCHIR SHAH
• 金额: $ 100万
• 依托单位: SCIOME, LLC
• 依托单位国家: 美国
• 财政年份: 2017
• 资助国家: 美国
• 起止时间: 2017-03-24 至 2022-03-23
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10379866
• 关键词: Aging; Animals; Arsenic; Bioinformatics; Biological Assay; DNA Methylation; DNA analysis; Data; Data Analyses; Exposure to; Film; Genomics; In Vitro; Liver; Microarray Analysis; Mouse Strains; Mus; Placenta; Technology; Three-dimensional analysis; Tissue-Specific Gene Expression; Toxic effect; Toxicogenomics; aqueous; cell free DNA; comparative; epigenomics; in vitro Model; metaplastic cell transformation

Projects needing support for toxicogenomic analysis included 1) support for circulating cell free DNA (ccfDNA); 2) support for Mouse Aging study by providing dendogram and SNP analysis for 10 strains of mice; 3) support epigenomic analysis of DNA methylation of arsenic-related changes in an in vitro model of cellular transformation; 4) analysis of 3D spheroids of HepaRG. Differential gene expression from TempO-Seq data was performed with fold chagnes and pvalues; 5) support was provided for analysis of microarray toxicogenomic data for placenta and liver from animals exposed to PFAS compounds; 6) support was provided for analysis of AFFF (aqueous film-forming foams) fpr comparative analysis of toxicity after in vitro exposures in HTT assays.

需要支持毒物基因组学分析的项目包括：1)支持循环细胞游离DNA (ccfDNA)；2)通过提供10株小鼠的树突图和SNP分析，为小鼠衰老研究提供支持；3)在体外细胞转化模型中支持DNA甲基化与砷相关变化的表观基因组分析；4) HepaRG三维球体分析。从TempO-Seq数据中进行差异基因表达，并进行fold change和pvalue；5)为PFAS暴露动物胎盘和肝脏微阵列毒理学数据分析提供支持；6)为水成膜泡沫（AFFF）的分析提供了支持，并对HTT实验中体外暴露后的毒性进行了比较分析。